Isoprenoid analog compounds and methods of making and use thereof

ABSTRACT

The invention provides compounds of formula I:  
                 
 
     wherein X, R 1 , R 2 , and n have any of the values defined in the specification, and their pharmaceutically acceptable salts. The compounds are useful, for example, for blocking prenylation transferase enzymes, for probing or diagnosing protein prenylation processes, and for treating cancer in a mammal. The invention also provides pharmaceutical compositions, processes for preparing compounds of formula I, and intermediates useful for the synthesis of compounds of formula I.

CROSS-REFERENCE TO RELATED APPLICATIONS

[0001] This non-provisional U.S. Patent Application claims priority to U.S. Provisional Patent Application Serial No. 60/281,170, filed Apr. 3, 2001, entitled “FLUORESCENT PROBES OF PROTEIN PRENYLATION”.

BACKGROUND OF THE INVENTION

[0002] Prenylation of proteins is a common form of post-translational processing found in many biological systems. For example, at least 300 human proteins are prenylated and many of these proteins play critical roles in essential signal transduction pathways. Mevalonic acid derivatives, known collectively as isoprenoids, are known to be central to mammalian metabolism, but the smaller intermediates in this pathway were viewed primarily as precursors to larger compounds such as steroids and dolichols. Not until 1989 was the presence of prenylated cysteines demonstrated in mammalian cells. The number of prenylated proteins continues to grow, with sequences for at least 300 prenylated proteins now recognized in humans corresponding to about 1% of the total cellular protein by mass. These include all of the known monomeric and trimeric G proteins, proteins which play central roles in a variety of signal transduction processes that regulate cell growth. Therefore, inhibition or modification of protein prenylation processes is a promising area for the development of new therapeutic agents and treatment methods, for example, anticancer agents and cancer treatments. Additionally, diagnosis or treatment regimes directed toward inhibition or modification of protein prenylation processes can be improved and refined with the help of enhanced means and methods of detecting changes in vivo or in vitro in the prenylation process.

[0003] Goody reported the preparation of detectable terpenoid analog compounds as substrates for GGPTase II in vitro. (Angew. Chem., Int. Ed. Eng., 1999, 38, 509-512; See also J. Davisson, et al. J. Org. Chem. 1986, 51, 4768-4779.) However, potential biologic and chemical instability considerations of these compounds may limit their utility, for example, in in vivo experiments where intracellular esterases can cleave the anthranilic ester linkage to the component parts thereby liberating a fluorescent anthranilic acid.

[0004] Other publications of interest are listed in the references section below.

[0005] U.S. Pat. Nos. 5,998,204 and 6,197,928 are of general interest and relate to fluorescent protein sensors for detection of analytes, for example, localization sequences for prenylation or for insertion into a plasma membrane ([CaaX] CAAX (SEQ ID) NO: 51).

[0006] Thus, there is a continuing need for compounds which can inhibit the prenylation process, and have improved stability, improved spectral detectability, or both.

SUMMARY OF THE INVENTION

[0007] The present invention provides analog compounds of key intermediates of isoprenoid biosynthesis and metabolism. These analogs can be prepared through chemical synthesis and can function as alternate substrates for enzymes involved in post-translation processing in either in vitro or in vivo. The compounds of the invention can be potent prenylation process inhibitor compounds which can also have improved stability, improved spectral detectability, or both. The compounds of the invention are also useful as probes for studying the prenylation process and related processes.

[0008] The invention provides a compound of formula I:

[0009] wherein:

[0010] X is independently —NR_(a)—, O, or S;

[0011] R₁ is a detectable group;

[0012] R₂ is independently

[0013] OH,

[0014] (C₁-C₁₀)alkanoyloxy,

[0015] —O—P(═O)(—OR_(a))₂,

[0016] —O—P(═O)(—OR_(a))—O—P(═O)(—OR_(a))₂,

[0017] —CH₂—O—P(═O)(—OR_(a))₂,

[0018] —CH₂—O—P(═O)(—OR_(a))—O—P(═O)(—OR_(a))₂,

[0019] —CH₂—P(═O)(—OR_(a))₂,

[0020] —CH{—P(═O)(—OR_(a))₂}₂,

[0021] —CH₂—P(═O)(—OR_(a))—O—P(═O)(—OR_(a))₂,

[0022] —CH═CH{—P(═O)(—OR_(a))₂}, or

[0023] —CH═C{—P(═O)(—OR_(a))₂}₂;

[0024] each R_(a) is independently hydrogen, (C₁-C₁₀)alkyl, (C₁-C₁₀)alkanoyl, (C₁-C₁₀)alkanoyloxy, (C₁-C₁₀)alkoxycarbonyl, or —CH₂—O—(C₁-C₁₀)alkanoyl;

[0025] n is independently 1, 2, or 3;

[0026] or a pharmaceutically acceptable salt thereof. The invention also provides a pharmaceutical composition comprising a compound of formula I and a pharmaceutically acceptable diluent or carrier.

[0027] The invention also provides a method of treating cancer, comprising administering to a mammal afflicted with cancer, an amount of a compound of the invention effective to treat the cancer.

[0028] The invention also provides a method of inhibiting a prenylation transferase or synthase enzyme comprising contacting the enzyme in vivo or in vitro with an effective amount of a compound of the invention.

[0029] The invention also provides a method of accessing the metabolic status of an enzyme, such as a prenylation transferase enzyme, comprising:

[0030] contacting the enzyme with an effective amount of a mixture of a farnesol analog compound of the invention and a geraniol or geranylgeraniol analog compound of the invention, and as described herein; and

[0031] measuring the relative ratio, or levels, of famesylation to geranylgeranylation of the famesol and geraniol or geranylgeraniol analog compounds accomplished by the enzyme, and wherein the ratio correlates with the metabolic status of the enzyme.

[0032] The invention also provides a compound of the invention for use in medical therapy or diagnosis, for example, treating cancer.

[0033] The invention also provides for the use of a compound of the invention for the manufacture of a medicament useful for the treatment of cancer.

[0034] The invention also provides for the use of a compound of the invention for the manufacture of a medicament useful for inhibiting prenylation transferase or synthase enzymes in a mammal.

[0035] The invention also provides processes and intermediates disclosed herein that are useful for preparing compounds of the invention. Some compounds of the formula I are useful as intermediates in preparing other compounds of formula I.

BRIEF DESCRIPTION OF DRAWINGS

[0036]FIG. 1 schematically illustrates isoprenoid biosynthesis and protein prenylation routes in embodiments of the present invention.

[0037]FIG. 2 schematically illustrates normal RAS famesylation in embodiments of the present invention.

[0038]FIG. 3 schematically illustrates an FTPase mediated reaction of Ras with a vinyl phosphonate in embodiments of the present invention.

DETAILED DESCRIPTION

[0039] The following definitions are used, unless otherwise described: halo is fluoro, chloro, bromo, or iodo. Alkyl, alkoxy, etc. denote both straight and branched groups; but reference to an individual radical such as “propyl” embraces only the straight chain radical, a branched chain isomer such as “isopropyl” being specifically referred to. When alkyl can be partially unsaturated, the alkyl chain may comprise one or more (e.g. 1, 2, 3, or 4) double or triple bonds in the chain.

[0040] “Aryl” denotes a phenyl radical or an ortho-fused bicyclic carbocyclic radical having about nine to ten ring atoms in which at least one ring is aromatic.

[0041] “Het” is a four-(4), five-(5), six-(6), or seven-(7) membered saturated or unsaturated heterocyclic ring having 1, 2, 3, or 4 heteroatoms selected from the group consisting of oxy, thio, sulfinyl, sulfonyl, and nitrogen, which ring is optionally fused to a benzene ring, or any cyclic heterocycle group which may be monocyclic or multi-cyclic. Het includes “heteroaryl,” which encompasses a radical attached via a ring carbon of a monocyclic aromatic ring containing five or six ring atoms consisting of carbon and 1, 2, 3, or 4 heteroatoms each selected from the group consisting of non-peroxide oxy, thio, and N(X) wherein X is absent or is H, O, C₁-₄alkyl, phenyl or benzyl, as well as a radical of an ortho-fused bicyclic heterocycle of about eight to ten ring atoms derived therefrom, particularly a benz-derivative or one derived by fusing a propylene, trimethylene, or tetramethylene diradical thereto.

[0042] The term “heterocycle” refers to a monovalent saturated or partially unsaturated cyclic non-aromatic group which contains at least one heteroatom, preferably 1 to 4 heteroatoms, selected from nitrogen (NR_(x), wherein R_(x) is hydrogen, alkyl, or a direct bond at the point of attachment of the heterocycle group), sulfur, phosphorus, and oxygen within at least one cyclic ring and which may be monocyclic or multi-cyclic. Such heterocycle groups preferably contain from 3 to 10 atoms. The point of attachment of the heterocycle group may be a carbon or nitrogen atom. This term also includes heterocycle groups fused to an aryl or heteroaryl group, provided the point of attachment is on a non-aromatic heteroatom-containing ring. Representative heterocycle groups include, by way of example, pyrrolidinyl, piperidinyl, piperazinyl, imidazolidinyl, morpholinyl, indolin-3-yl, 2-imidazolinyl, 1,2,3,4-tetrahydroisoquinolin-2-yl, quinuclidinyl and the like.

[0043] The terms “include”, “for example”, “such as”, and the like are used illustratively and are not intended to limit the present invention.

[0044] The indefinite articles “a” and “an” mean “at least one” or “one or more” when used in this application, including the claims, unless specifically indicated otherwise.

[0045] “Optional” or “optionally” mean that the subsequently described event or condition may but need not occur, and that the description includes instances where the event or condition occurs and instances in which it does not. For example, “optionally substituted” means that the named substituent may be present but need not be present, and the description includes situations where the named substituent is included and situations where the named substituent is not included.

[0046] The compounds of the present invention are generally named according to the IUPAC or CAS nomenclature system. Abbreviations which are well known to one of ordinary skill in the art may be used (e.g. “Ph” for phenyl, “Me” for methyl, “Et” for ethyl, “h” for hour or hours and “rt” for room temperature).

[0047] Specific and preferred values listed below for radicals, substituents, and ranges, are for illustration only; they do not exclude other defined values or other values within defined ranges for the radicals and substituents. The compounds of the invention include compounds of formula I having any combination of the values, specific values, more specific values, and preferred values described herein.

[0048] The term “detectable group” refers to any known fluorophore substituent, for example, fluorescent groups including, but not limited to, anthranilic acid compounds, aminonaphthalenesulfonic acid compounds, coumarin compounds, and like groups or compounds and as illustrated herein.

[0049] The term “treatment” refers to any treatment of a pathologic condition in a mammal, particularly a human, and includes:

[0050] (i) preventing the pathologic condition from occurring in a subject which may be predisposed to the condition but has not yet been diagnosed with the condition and, accordingly, the treatment constitutes prophylactic treatment for the disease condition;

[0051] (ii) inhibiting the pathologic condition, i.e., arresting its development;

[0052] (iii) relieving the pathologic condition, i.e., causing regression of the pathologic condition; or

[0053] (iv) relieving the conditions mediated by the pathologic condition.

[0054] The term “therapeutically effective amount” refers to that amount of a compound of the invention which is sufficient to effect treatment, as defined above, when administered to a mammal in need of such treatment. The therapeutically effective amount will vary depending upon the subject and disease condition being treated, the weight and age of the subject, the severity of the disease condition, the manner of administration and the like, which can readily be determined by one of ordinary skill in the art.

[0055] The term “pharmaceutically acceptable salts” includes, but is not limited to, salts well known to those skilled in the art, for example, mono-salts (e.g. alkali metal and ammonium salts) and poly salts (e.g. di- or tri-salts,) of the compounds of the invention. Pharmaceutically acceptable salts of compounds of formula I are where, for example, an exchangeable group, such as hydrogen in —OH, —NH—, or —P(═O)(OH)—, is replaced with a pharmaceutically acceptable cation (e.g. a sodium, potassium, or ammonium ion) and can be conveniently be prepared from a corresponding compound of formula I by, for example, reaction with a suitable base. In cases where compounds are sufficiently basic or acidic to form stable nontoxic acid or base salts, administration of the compounds as salts may be appropriate. Examples of pharmaceutically acceptable salts are organic acid addition salts formed with acids which form a physiological acceptable anion, for example, tosylate, methanesulfonate, acetate, citrate, malonate, tartarate, succinate, benzoate, ascorbate, α-ketoglutarate, and α-glycerophosphate. Suitable inorganic salts may also be formed, including hydrochloride, sulfate, nitrate, bicarbonate, and carbonate salts. Pharmaceutically acceptable salts may be obtained using standard procedures well known in the art, for example, by reacting a sufficiently basic compound such as an amine with a suitable acid affording a physiologically acceptable anion. Alkali metal (for example, sodium, potassium or lithium) or alkaline earth metal (for example, calcium) salts of carboxylic acids can also be made.

[0056] It will be appreciated by those skilled in the art that compounds of the invention having a chiral center may exist in and be isolated in optically active and racemic forms. Some compounds may exhibit polyrnorphism. It is to be understood that the present invention encompasses any racemic, optically-active, polymorphic, or stereoisomeric form, or mixtures thereof, of a compound of the invention, which possess the useful properties described herein, it being well known in the art how to prepare optically active forms (for example, by resolution of the racemic form by recrystallization techniques, by synthesis from optically-active starting materials, by chiral synthesis, or by chromatographic separation using a chiral stationary phase) and how to determine transferase inhibitory activity using the standard tests described herein, or using other similar tests which are well known in the art. In particular, it is understood that compounds of formula I, such as R₁, R₂, or substituents thereon, can exist in the corresponding tautomeric “enol” form, and that such tautomers are included as compounds of the invention.

[0057] Specific and preferred values listed below for radicals, substituents and ranges, are for illustration only; they do not exclude other defined values or other values within defined ranges for the radicals and substituents.

[0058] Specifically, (C₁-C₁₀)alkyl can be methyl, ethyl, propyl, isopropyl, butyl, iso-butyl, sec-butyl, pentyl, 3-pentyl, hexyl, heptyl, octyl, nonyl, or decyl; (C₁-C₁₀)alkoxy can be methoxy, ethoxy, propoxy, isopropoxy, butoxy, iso-butoxy, sec-butoxy, pentoxy, 3-pentoxy, hexyloxy, heptyloxy, octyloxy, nonyloxy or decyloxy; (C₂-C₆)alkenyl can be vinyl, 1-propenyl, 2-propenyl, 1-butenyl, 2-butenyl, 3-butenyl, 1-pentenyl, 2-pentenyl, 3-pentenyl, 4-pentenyl, 1-hexenyl, 2-hexenyl, 3-hexenyl, 4-hexenyl, or 5-hexenyl; (C₁-C₁₀)alkanoyl can be acetyl, propanoyl, butanoyl, pentanoyl, hexanoyl, heptanoyl, octanoyl, nonanoyl, or decanoyl; (C₁-C₁₀)alkoxycarbonyl can be methoxycarbonyl, ethoxycarbonyl, propoxycarbonyl, isopropoxycarbonyl, butoxycarbonyl, pentoxycarbonyl, hexyloxycarbonyl, heptyloxycarbonyl, octyloxycarbonyl, nonyloxycarbonyl or decyloxycarbonyl; (C₁-C₁₀)alkanoyloxy can be formyloxy, acetoxy, propanoyloxy, butanoyloxy, isobutanoyloxy, pentanoyloxy, hexanoyloxy, heptanoyloxy, octanoyloxy, nonanoyloxy, or decanoyloxy; aryl can be phenyl, indenyl, naphthyl, or anthracenyl; heterocycle can benztriazolyl, triazinyl, oxazoyl, isoxazolyl, oxazolidinoyl, isoxazolidinoyl, thiazolyl, isothiazoyl, pyrazolyl, imidazolyl, pyrrolyl, pyrazinyl, pyridinyl, morpholinyl, quinolinyl, isoquinolinyl, indolyl, pyrimidinyl, piperidinyl, pyrrolidinyl, morpholinyl, thiomorpholinyl, or piperazinyl; and heteroaryl can be, for example, furyl, imidazolyl, triazolyl, triazinyl, oxazoyl, isoxazoyl, thiazolyl, isothiazoyl, pyrazolyl, pyrrolyl, pyrazinyl, tetrazolyl, 1-methyl-1H-tetrazol-5-yl, pyridyl, (or its N-oxide), thienyl, pyrimidinyl (or its N-oxide), indolyl, isoquinolyl (or its N-oxide) or quinolyl (or its N-oxide).

[0059] Specific and preferred values listed below for radicals, substituents, and ranges, are for illustration only; they do not exclude other defined values or other values within defined ranges for the radicals and substituents.

[0060] Specifically, (C₁-C₆)alkyl can be methyl, ethyl, propyl, isopropyl, butyl, iso-butyl, sec-butyl, pentyl, 3-pentyl, or hexyl.

[0061] Specifically, (C₁-C₆)alkoxy can be methoxy, ethoxy, propoxy, isopropoxy, butoxy, iso-butoxy, sec-butoxy, pentoxy, 3-pentoxy, or hexoxy.

[0062] A specific compound of formula I is the formula II:

[0063] where R₁ is a 2-methoxycarboxy phenyl detectable group, R₂ is diphosphate ester, n=1 to 3, and X is NH; or a pharmaceutically acceptable salt thereof.

[0064] Another specific compound of formula I is the formula III:

[0065] where n=0 to 3, and R is (C₁-C₁₀)alkyl, for example, methyl; or a pharmaceutically acceptable salt thereof.

[0066] A specific value for R₁ is a detectable group, such as a known fluorophore substituent.

[0067] A specific value for R₁ is an aryl group, such as phenyl, naphthyl, or anthracenyl, which aryl group is optionally substituted with one or more substituents independently selected from —COOR_(b), —S(O)_(n)NR_(b)R_(b), halo, cyano, nitro, aryl, heterocycle, (C₂-C₆)alkenyl, —C(═O)NR_(b)R_(b), —OC(═O)NR_(b)R_(b), —NR_(b)R_(b), or —S(O)_(n)R_(b), where each R_(b) is independently hydrogen, (C₁-C₁₀)alkyl, or (C₁-C₁₀)alkanoyl.

[0068] Another specific value for R₁ is Het, for example a heterocycle or heteroaryl, such as anthranil or quinoline, which Het is optionally substituted with one or more substituents independently selected from —COOR_(b), —S(O)_(n)NR_(b)R_(b), halo, cyano, nitro, aryl, heterocycle, (C₂-C₆)alkenyl, —C(═O)NR_(b)R_(b), —OC(═O)NR_(b)R_(b), —NR_(b)R_(b), or —S(O)_(n)R_(b), where each R_(b) is independently hydrogen, (C₁-C₁₀)alkyl, or (C₁-C₁₀)alkanoyl.

[0069] Another specific value for R₁ is substituted phenyl.

[0070] Another specific value for R₁ is phenyl substituted with a —COOR_(b).

[0071] Another specific value for R₁ is 2-methoxycarboxy phenyl.

[0072] Another specific value for R₁ is substituted naphthyl.

[0073] Another specific value for R₁ is naphthyl substituted with a —S(O)_(n)NR_(b)R_(b).

[0074] Another specific value for R₁ is naphthyl substituted at the 5-position with a —S(O)_(n)NR_(b)R_(b) substituent.

[0075] Another specific value for R₁ is 5-N,N′-dimethylaminosulfonyl naphthy-1-yl.

[0076] A specific value for R₂ is OH.

[0077] Another specific value for is (C₁-C₁₀)alkanoyloxy.

[0078] Another specific value for R₂ is —O—P(═O)(—OR_(a))₂.

[0079] Another specific value for R₂ is —O—P(═O)(—OR_(a))—O—P(═O)(—OR_(a))₂.

[0080] Another specific value for R₂ is —CH₂—O—P(═O)(—OR_(a))₂.

[0081] Another specific value for R₂ is —CH₂—O—P(═O)(—OR_(a))—O—P(═O)(—OR_(a))₂.

[0082] Another specific value for R₂ is —CH₂—P(═O)(—OR_(a))₂.

[0083] Another specific value for R₂ is —CH{—P(═O)(—OR_(a))₂}₂.

[0084] Another specific value for R₂ is —CH₂—P(═O)(—OR_(a))—O—P(═O)(—OR_(a))₂.

[0085] Another specific value for R₂ is —CH═CH {—P(═O)(—OR_(a))₂}.

[0086] Another specific value for R₂ is —CH═C{—P(═O)(—OR_(a))₂}₂.

[0087] A specific value for R_(a) is hydrogen.

[0088] A specific value for R_(a) is —C(═O)—CH₃.

[0089] Another specific value for R_(a) is —CH₃.

[0090] Another specific value for R_(a) is —CH₂—O—(C₁-C₆)alkanoyl.

[0091] A specific value for R_(b) is hydrogen.

[0092] Another specific value for R_(b) is —CH₃.

[0093] A specific value for n is 1.

[0094] Another specific value for n is 2.

[0095] Another specific value for n is 3.

[0096] A specific value for X is —NR_(a)—.

[0097] A specific value for X is —NH—.

[0098] A specific value for X is —N(CH₃)—.

[0099] A specific value for X is —O—.

[0100] A specific value for X is —S—.

[0101] A specific value for a protein conjugate of the present invention is a protein linked to a fluorescent fragment of a compound of the invention, for example, the Ras adduct of the compound of formula I, such as compounds of the formula II or III.

[0102] Processes and novel intermediates useful for preparing compounds of formula I are provided as further embodiments of the invention and are illustrated by the following procedures in which the meanings of the generic radicals are as given above unless otherwise qualified. Compounds of formula I and preceding intermediates wherein R₁, R₂, and n have any of the values, specific values, or preferred values defined herein, can be prepared in accordance with the preparative schemes described below.

[0103] The invention provides a pharmaceutical composition, comprising an effective amount of a compound of formula I as described hereinabove; or a pharmaceutically acceptable salt thereof; and a pharmaceutically acceptable carrier. The present compositions are preferably presented in a form suitable for absorption by the gastro-intestinal tract.

[0104] The compounds of formula I can be formulated as pharmaceutical compositions and administered to a mammalian host, such as a human patient in a variety of forms adapted to a selected route of administration, i.e., by oral, parenteral, intravenous, intramuscular, topical, or subcutaneous routes. Thus, the present compounds may be systemically administered, e.g., orally, in combination with a pharmaceutically acceptable vehicle such as an inert diluent or an assimilable edible carrier. They may be enclosed in hard or soft shell gelatin capsules, may be compressed into tablets, or may be incorporated directly with the food of the patient's diet. For oral therapeutic administration, the active compound may be combined with one or more excipients and used in the form of ingestible tablets, buccal tablets, troches, capsules, elixirs, suspensions, syrups, wafers, and the like. Such compositions and preparations should contain at least 0.1% of active compound. The percentage of the compositions and preparations may, of course, be varied and may conveniently be between about 2 to about 60% of the weight of a given unit dosage form. The amount of active compound in such therapeutically useful compositions is such that an effective dosage level will be obtained.

[0105] The tablets, troches, pills, capsules, and the like may also contain the following: binders such as gum tragacanth, acacia, corn starch or gelatin; excipients such as dicalcium phosphate; a disintegrating agent such as corn starch, potato starch, alginic acid and the like; a lubricant such as magnesium stearate; and a sweetening agent such as sucrose, fructose, lactose or aspartame or a flavoring agent such as peppermint, oil of wintergreen, or cherry flavoring may be added. When the unit dosage form is a capsule, it may contain, in addition to materials of the above type, a liquid carrier, such as a vegetable oil or a polyethylene glycol. Various other materials may be present as coatings or to otherwise modify the physical form of the solid unit dosage form. For instance, tablets, pills, or capsules may be coated with gelatin, wax, shellac or sugar and the like. A syrup or elixir may contain the active compound, sucrose or fructose as a sweetening agent, methyl and propylparabens as preservatives, a dye and flavoring such as cherry or orange flavor. Of course, any material used in preparing any unit dosage form should be pharmaceutically acceptable and substantially non-toxic in the amounts employed. In addition, the active compound may be incorporated into sustained-release preparations and devices.

[0106] The active compound may also be administered intravenously or intraperitoneally by infusion or injection. Solutions of the active compound or its salts can be prepared in water, optionally mixed with a nontoxic surfactant. Dispersions can also be prepared in glycerol, liquid polyethylene glycols, triacetin, and mixtures thereof and in oils. Under ordinary conditions of storage and use, these preparations contain a preservative to prevent the growth of microorganisms.

[0107] The pharmaceutical dosage forms suitable for injection or infusion can include sterile aqueous solutions or dispersions or sterile powders comprising the active ingredient which are adapted for the extemporaneous preparation of sterile injectable or infusible solutions or dispersions, optionally encapsulated in liposomes. In all cases, the ultimate dosage form should be sterile, fluid and stable under the conditions of manufacture and storage. The liquid carrier or vehicle can be a solvent or liquid dispersion medium comprising, for example, water, ethanol, a polyol (for example, glycerol, propylene glycol, liquid polyethylene glycols, and the like), vegetable oils, nontoxic glyceryl esters, and suitable mixtures thereof. The proper fluidity can be maintained, for example, by the formation of liposomes, by the maintenance of the required particle size in the case of dispersions or by the use of surfactants. The prevention of the action of microorganisms can be brought about by various antibacterial and antifungal agents, for example, parabens, chlorobutanol, phenol, sorbic acid, thimerosal, and the like. In many cases, it will be preferable to include isotonic agents, for example, sugars, buffers or sodium chloride. Prolonged absorption of the injectable compositions can be brought about by the use in the compositions of agents delaying absorption, for example, aluminum monostearate and gelatin.

[0108] Sterile injectable solutions are prepared by incorporating the active compound in the required amount in the appropriate solvent with various of the other ingredients enumerated above, as required, followed by filter sterilization. In the case of sterile powders for the preparation of sterile injectable solutions, the preferred methods of preparation are vacuum drying and the freeze drying techniques, which yield a powder of the active ingredient plus any additional desired ingredient present in the previously sterile-filtered solutions.

[0109] For topical administration, the present compounds may be applied in pure form, i.e., when they are liquids. However, it will generally be desirable to administer them to the skin as compositions or formulations, in combination with a dermatologically acceptable carrier, which may be a solid or a liquid.

[0110] Useful solid carriers include finely divided solids such as talc, clay, microcrystalline cellulose, silica, alumina and the like. Useful liquid carriers include water, alcohols or glycols or water-alcohol/glycol blends, in which the present compounds can be dissolved or dispersed at effective levels, optionally with the aid of non-toxic surfactants. Adjuvants such as fragrances and additional antimicrobial agents can be added to optimize the properties for a given use. The resultant liquid compositions can be applied from absorbent pads, used to impregnate bandages and other dressings, or sprayed onto the affected area using pump-type or aerosol sprayers.

[0111] Thickeners such as synthetic polymers, fatty acids, fatty acid salts and esters, fatty alcohols, modified celluloses or modified mineral materials can also be employed with liquid carriers to form spreadable pastes, gels, ointments, soaps, and the like, for application directly to the skin of the user.

[0112] Examples of useful dermatological compositions which can be used to deliver the compounds of the invention to the skin are disclosed in Jacquet et al. (U.S. Pat. No. 4,608,392), Geria (U.S. Pat. No. 4,992,478), Smith et al. (U.S. Pat. No. 4,559,157) and Wortzman (U.S. Pat. No. 4,820,508).

[0113] The present compositions may also be prepared in suitable forms for absorption through the mucous membranes of the nose and throat or bronchial tissues and may conveniently take the form of powder or liquid sprays or inhalants, lozenges, throat paints, etc. For medication of the eyes or ears, the preparations may be presented as individual capsules, in liquid or semi-solid form, or may be used as drops, etc. Topical applications may be formulated in hydrophobic or hydrophilic bases as ointments, creams, lotions, paints, powders, etc.

[0114] For veterinary medicine, the composition may, for example, be formulated as an intra-mammary preparation in either long acting or quick-release bases.

[0115] Useful dosages of the compounds of the invention can be determined by comparing their in vitro activity, and in vivo activity in animal models. Methods for the extrapolation of effective dosages in mice, and other animals, to humans are known to the art; for example, see U.S. Pat. No. 4,938,949.

[0116] Generally, the concentration of the compound(s) of the invention in a liquid composition, such as a lotion, will be from about 0.1-25 wt-%, preferably from about 0.5-10 wt-%. The concentration in a semi-solid or solid composition such as a gel or a powder will be about 0.1-5 wt-%, preferably about 0.5-2.5 wt-%.

[0117] The compositions per unit dosage, whether liquid or solid may contain from 0.1% to 99% of active material (compound I or salts thereof), the preferred range being from about 10-60%. The composition will generally contain from about 15 mg to about 1,500 mg by weight of active ingredient based upon the total weight of the composition; however, in general, it is preferable to employ a dosage amount in the range of from about 250 mg to 1,000 mg. In parenteral administration the unit dosage is usually the pure compound in a slightly acidified sterile water solution or in the form of a soluble powder intended for solution. Single dosages for injection, infusion or ingestion may be administered, i.e., 1-3 times daily, to yield levels of about 0.5-50 mg/kg, for adults.

[0118] The ability of a compound of the invention to function as a transferase inhibitor or blocker can be demonstrated using the test methods described below, or using other tests which are well known in the art. Representative compounds of formula I can be readily evaluated as inhibitors the above mentioned transferases by, for example, relative IC₅₀ analysis.

[0119] The present invention provides chemical syntheses of fluorescent analogs of famesol (FOH), farnesyl pyrophosphate (FPP), geranylgeraniol (GGOH), and geranylgeranyl pyrophosphate (GGPP). These analogs can be designed to display minimal differences from the natural substrates to maximize the possibility that they can be incorporated into various lipoproteins.

[0120] The present invention suggests in vitro testing of the compounds of the present invention with prenyl transferases and their protein substrates to demonstrate inhibition of modified proteins. For example, experiments with isolated Ras proteins, normal isoprenoid substrates, and farnesyl protein transferase should give unprenylated proteins.

[0121] The present invention suggests in vitro testing of the compounds of the present invention with prenyl transferases and their protein substrates to demonstrate formation of unnaturally modified proteins. For example, experiments with isolated Ras proteins and famesyl protein transferase should give “farnesylated” proteins carrying fluorescent labels and provide protein standards for in vivo experiments.

[0122] The present invention suggests in vivo testing of the compounds of the present invention in cell lines to determine if the fluorescent isoprenoid analogs serve as inhibitors for the enzymes that convert proteins to prenylated lipoproteins, ultimately resulting in the accumulation of unmodified proteins and reduction in prenylated proteins in living cells. These experiments can be accomplished in normal culture media or with cells depleted of natural isoprenoids (e.g., by treatment with lovastatin).

[0123] The present invention suggests in vivo testing of the compounds of the present invention in cell lines to determine if the fluorescent isoprenoid analogs serve as substrates for the enzymes that convert proteins to prenylated lipoproteins, ultimately providing fluorescent prenylated proteins in living cells. These experiments can be done in normal culture media or with cells depleted of natural isoprenoids (e.g., by treatment with lovastatin).

[0124] The present invention provides chemical synthesis of analogs of the natural isoprenoids doubly modified to re-direct post-translational processing and label the resulting proteins with fluorescent tags.

[0125] The present invention provides a method for the analysis of cellular traffic in prenylated proteins, for example, using confocal microscopy to monitor localization of prenylated proteins carrying fluorescent labels. These experiments can be done initially under conditions as natural as possible and then in the presence of representative FPTase inhibitors or alternative substrates designed to redirect post-translational processing.

[0126] The following discussion, figures, and examples further describe and exemplify making and using the present invention.

[0127] Three prenylation motifs are known and each is recognized by a specific prenyl transferase. A first prenyl transferase is the enzyme farnesyl protein transferase (FTase or FPTase) recognizes a carboxyl terminal amino acid sequence described as a “—CAAX box,” where C is cysteine, A is any aliphatic amino acid, and X is serine, methionine, glutamine, or alanine. FPTase transfers a farnesyl group from farnesyl pyrophosphate (FPP) to the sulfhydryl group of the cysteine. The resultant protein is further processed by proteolytic cleavage of the three C-terminal amino acids in a reaction catalyzed by the protease RCE1, and then methylation of the newly freed carboxyl group through reaction catalyzed by the enzyme Icmt. The net effect of these transformations is transformation of a hydrophilic protein found primarily in the cytosol to a hydrophobic protein found primarily in association with a lipid membrane.

[0128] A second prenyl transferase (GGTase or GGPTase I) is closely related to FPTase in its structure and substrate specificity. This enzyme transfers a geranylgeranyl group from geranylgeranyl pyrophosphate (GGPP) to a cysteine sulfhydryl group in proteins bearing a —CAAX box where the terminal amino acid is a leucine. It is highly selective for transfer of a geranylgeranyl group but also will bind FPP and catalyze transfer of a famesyl group to some substrates.

[0129] A third enzyme known to transfer prenyl groups to proteins is geranylgeranyl transferase II (GGTase II or GGPTase II) also referred to as Rab geranylgeranyl transferase. Until very recently this enzyme was thought to have an absolute specificity for GGPP and not bind FPP, but this has now been questioned. Its protein substrates differ significantly from those of GGPTase I in that two cysteine residues are required at, or adjacent to, the carboxyl terminus in amino acid sequences such as —XXCC, —XCXC, or —CCXX. Finally, short peptides bearing these sequences are not substrates for this enzyme, while short sequences with the —CAAX box do serve as substrates for FPTase and/or GGPTase I.

[0130]FIG. 2 shows schematically the overall mechanism of RAS farnesylation involves FPTase catalyzed nucleophilic attack of the —SH group of the cysteine in the —CAAX box on the C-1 position of farnesyl pyrophosphate. Whether by an SN¹ or SN² mechanism, or some intermediate variant possible only in the enzyme's active site, this results in displacement of pyrophosphate and formation of a new covalent bond between RAS and the farnesyl group. A inhibition strategy for interrupting this process is one using compound analogs where a phosphate group is not readily lost. For example, various farnesylphosphonates, wherein a carbon-phosphorus bond joins the phosphoryl group to the farnesyl chain, incorporate this essential property along with a highly desirable similarity to the natural substrate.

[0131]FIG. 3 shows schematically an example of a reaction with certain other analog compounds which afford an unnaturally modified Ras protein and which analog compound products or adducts may be unable to undergo retro-conjugate addition and therefore have greater stability and utility for inhibiting transferase enzymes and for probing the mechanism of various transferase enzymes and processes.

[0132] Other features of the invention will become apparent in the course of the following descriptions of exemplary embodiments which are given for illustration of the invention and are not intended to be limiting thereof.

Description of the Preferred Embodiments EXAMPLE 1

[0133] Preparation of Fluorescent Analog Compounds

[0134] As exemplified in the reaction scheme below, Fischer esterification of commercial anthranilic acid provides the corresponding amino ester 54. Reductive amination of amine 54 with aldehyde 55, derived from SeO₂ oxidation of geranyl acetate and subsequent MnO₂ oxidation, gave the desired amine 56 and subsequent cleavage of the acetate gave the famesol analog 57. The resulting famesol analog (57) has a much greater degree of metabolic stability compared to other previously prepared analogs since this compound employs an amine linkage to bind an anthranilic acid to the terpenoid chain.

[0135] Compound 57 is highly fluorescent and it readily penetrates cell membranes to afford fluorescent cells. Compound 58 can be used in enzyme experiments with FPTase and Ras in order to obtain standard Ras proteins labeled with the fluorescent isoprenoid analog. Similarly compound 62 can be used with GGPTase I or II and proteins such as Rho B to obtain other protein standards. Protein standards obtained from in vitro experiments can then be used to analyze cell lysates for the formation of analogous proteins through in vivo experiments. Compound 58 ¹H NMR(D₂O) δ7.6 (1H), 7.2 (1H), 6.4 (2H), 5.4 (1H), 5.2 (1H), 4.4 (2H), 3.6 (3H), 3.4 (2H), 2.0 (2H), 1.8 (2H), 1.6 (3H), 1.4 (3H); and ³¹P NMR −6.9 (d, IP) −9.75 (d, IP).

EXAMPLE 2

[0136] Preparation of Fluorescent Analog Compounds

[0137] A second family of isoprenoid analogs can be prepared as shown below and have useful fluorescent properties based on aminonaphthalenesulfonic acids related to the dansyl group. Commercial 5-aminonaphthalene sulfonic acid (63) is first protected as its Boc derivative 64, and then converted to the N,N-dimethylsulfonamide (66) via the corresponding sulfonyl chloride (65). After cleavage of the Boc group, reductive amination is conducted with amine 67 and the aldehyde (68), derived from oxidation of prenyl acetate, affords the farnesol analog 69. The corresponding alcohol (70) can be used directly in whole cell experiments, and converted to the corresponding pyrophosphate (71) for either in vitro or in vivo use. The geranylgeraniol analog 73, as well as its pyrophosphate 74, can be obtained through parallel reactions if the geranyl acetate derivative 55 is used in the reductive anination, for example, to afford amine 72. Compound (73) ¹H NMR(CDCl₃) δ 8.20 (dd, 1H, J=6.23, 1.16 Hz), 8.12 (d, 1H, J=7.68 Hz), 8.09 (d, 1H, J=7.85 Hz), 7.49 (dd, 1H, J=7.30, 0.93 Hz), 7.46 (dd, 1H, J=8.80, 1.53 Hz), 6.68 (d, 1H, J=7.71 Hz), 5.48 (dt, 1H, J=5.81, 1.1 Hz), 5.38 (dt, 1H, J=68, 1.11 Hz), 4.15 (d, 1H, J=7.05 Hz), 4.10 (d, 1H, J=7.55 Hz), 3.82 (s, 2H), 2.82 (s, 6H), 2.24 (dd, 2H, J=14.48, 7.11 Hz), 2.09 (t, 2H, 7.78 Hz), 1.76 (s, 3H), 1.68 (s, 3H); ¹³C NMR(CDCl₃) δ 144.1, 139.1, 133.1, 131.8, 130.3, 130.1, 128.9, 126.3, 126.0, 124.4, 123.8, 122.5, 114.1, 105.8, 59.3, 51.9, 39.1, 37.4(2C), 26.0, 16.2, 14.9; and High Resolution Mass Spectra m/z obsd. 403.2059 (M+H)⁺, calcd for C₂₂H₃₁N₂O₃S 403.2055.

[0138] Advantages of naphthalene-based analogs include the dansyl-like compounds which can provide prenylated proteins with fluorescent properties that differ from those of the anthranilate-based compounds. One of ordinary skill in the art would expect an absorption maximum at about 340 nm but an emission maximum of about 540 nm for dansyl derivatives. In addition, if the dansyl-based compounds can serve as substrates, it might be possible to construct famesol analogs with one set of spectral properties (e.g., based on anthranilate derivatives) and geranylgeraniol derivatives with a second set of properties (e.g., based on the larger dansyl group). The availability of fluorescent derivatives of both isoprenoid series as metabolic probes enables one to establish the ratio of famesylation to geranylgeranylation under different conditions.

EXAMPLE 3

[0139] The following illustrate representative pharmaceutical dosage forms, containing a compound of formula I (‘Compound X’), for therapeutic or prophylactic use in humans. (i) Tablet 1 mg/tablet ‘Compound X’ 100.0 Lactose  77.5 Povidone  15.0 Croscarmellose sodium  12.0 Microcrystalline cellulose  92.5 Magnesium stearate  3.0 300.0 (ii) Tablet 2 mg/tablet ‘Compound X’  20.0 Microcrystalline cellulose 410.0 Starch  50.0 Sodium starch glycolate  15.0 Magnesium stearate  5.0 500.0 (iii) Capsule mg/capsule ‘Compound X’  10.0 Colloidal silicon dioxide  1.5 Lactose 465.5 Pregelatinized starch 120.0 Magnesium stearate  3.0 600.0 (iv) Injection 1 (1 mg/ml) mg/ml ‘Compound X’ (free acid form)  1.0 Dibasic sodium phosphate 12.0 Monobasic sodium phosphate  0.7 Sodium chloride  4.5 1.0 N Sodium hydroxide solution q.s. (pH adjustment to 7.0-7.5) Water for injection q.s. ad 1 mL (v) Injection 2 (10 mg/ml) mg/ml ‘Compound X’ (free acid form)  10.0 Monobasic sodium phosphate  0.3 Dibasic sodium phosphate  1.1 Polyethylene glycol 400 200.0 01 N Sodium hydroxide solution q.s. (pH adjustment to 7.0-7.5) Water for injection q.s. ad 1 mL (vi) Aerosol mg/can ‘Compound X’    20.0 Oleic acid    10.0 Trichloromonofluoromethane  5,000.0 Dichlorodifluoromethane 10,000.0 Dichlorotetrafluoroethane  5,000.0

[0140] The above formulations may be obtained by conventional procedures well known in the pharmaceutical art. Although specific quantities of “Compound X” are shown in the above illustrative examples, it is to be understood that the compounds can be present in any ratio provided the final formulation possesses the desired formulation properties.

[0141] All publications, patents, and patent documents are incorporated by reference herein in their entirety. The invention has been described with reference to various specific and preferred embodiments and techniques. However, it should be understood that many variations and modifications may be made while remaining within the spirit and scope of the invention.

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[0192] Stereoelectronic Effects in Biomolecules. Gorenstein, D. G. Chem. Rev. 1987, 87, 1047-1077. b) Stereoelectronic Effects on the Conformation and Kinetics of Nucleophilic Displacement-Reactions in Epimeric 6-Membered Ring Phosphonate Diesters. Chang, J. W. A.; Gorenstein, D. G. Tetrahedron, 1987, 43, 5187-5196.

[0193] Targeted inactivation of the isoprenylcysteine carboxymethyltransferase gene causes mislocation of K-Ras in mammalian cells. Bergo, M. O.; Leung, G. K.; Ambroziack, P.; Otto, J. C.; Casey, P. J.; Young, S. G. J. Biol. Chem. 2000, 275, 17605-17610.

[0194] Mutational and Biochemical Analysis of Plasma Membrane Targeting Mediated by the Farnesylated, Polybasic Carboxy Terminus of K-ras4B. Roy, M. O.; Leventis, R.; Silvius, J. R. Biochemistry 2000, 39, 8298-8307. 

What is claimed is:
 1. A compound of formula I:

wherein: X is independently-NR_(a)—, O, or S; R₁ is a detectable group; R₂ is independently OH, (C₁-C₁₀)alkanoyloxy, —O—P(═O)(—OR_(a))₂, —O—P(═O)(—OR_(a))—O—P(═O)(—OR_(a))₂, —CH₂—O—P(═O)(—OR_(a))₂, —CH₂—O—P(═O)(—ORa)—O—P(═O)(—OR_(a))₂, —CH₂—P(═O)(—OR_(a))₂, —CH{—P(═O)(—OR_(a))₂}₂, —CH₂—P(═O)(—OR_(a))—O—P(═O)(—OR_(a))₂, —CH═CH{—P(═O)(—OR_(a))₂}, or —CH═C{—P(═O)(—OR_(a))₂}₂; each R_(a) is independently hydrogen, (C₁-C₁₀)alkyl, (C₁-C₁₀)alkanoyl, (C₁-C₁₀)alkanoyloxy, (C₁-C₁₀)alkoxycarbonyl, or —CH₂—O—(C₁-C₁₀)alkanoyl; n is independently 1, 2, or 3; or a pharmaceutically acceptable salt thereof.
 2. The compound of claim 1 wherein the detectable group is aryl or Het, optionally substituted with one or more substituents independently selected from —COOR_(b), —S(O)_(n)NR_(b)R_(b), halo, cyano, nitro, aryl, heterocycle, (C₁-C₁₀)alkoxy, (C₂-C₆)alkenyl, —C(═O)NR_(b)R_(b), —OC(═O)NR_(b)R_(b), —NR_(b)R_(b), or —S(O)_(n)R_(b), where each R_(b) is independently hydrogen, (C₁-C₁₀)alkyl, or (C₁-C₁₀)alkanoyl.
 3. The compound of claim 2 wherein aryl or Het is phenyl, indenyl, naphthyl, anthracenyl, or anthranil, which aryl or Het is optionally substituted with one or more substituents independently selected from —COOR_(b), —S(O)_(n)NR_(b)R_(b), halo, cyano, nitro, aryl, heterocycle, (C₂-C₆)alkenyl, —C(═O)NR_(b)R_(b), —OC(═O)NR_(b)R_(b), —NR_(b)R_(b), or —S(O)_(n)R_(b), where each R_(b) is independently hydrogen, (C₁-C₁₀)alkyl, or (C₁-C₁₀)alkanoyl.
 4. The compound of any one of claims 1-3 wherein R₁ is substituted phenyl.
 5. The compound of any one of claims 1-3 wherein R₁ is phenyl substituted with —COOR_(b).
 6. The compound of any one of claims 1-3 wherein R₁ is 2-methoxycarboxy phenyl.
 7. The compound of any one of claims 1-3 wherein R₁ is substituted naphthyl.
 8. The compound of any one of claims 1-3 wherein R₁ is naphthyl substituted with a —S(O)_(n)NR_(b)R_(b).
 9. The compound of any one of claims 1-3 wherein R₁ is naphthyl substituted at the 5-position with a —S(O)_(n)NR_(b)R_(b) substituent.
 10. The compound of any one of claims 1-3 wherein R1 is 5-N,N′-dimethylaminosulfonyl naphthy-1-yl.
 11. The compound of any one of claims 1-10 wherein R₂ is OH.
 12. The compound of any one of claims 1-10 wherein R₂ is (C₁-C₁₀)alkanoyloxy.
 13. The compound of any one of claims 1-10 wherein R₂ is —O—P(═O)(—OR_(a))₂.
 14. The compound of any one of claims 1-10 wherein R₂ is —O—P(═O)(—OR_(a))—O—P(═O)(—OR_(a))₂.
 15. The compound of any one of claims 1-10 wherein R₂ is —CH₂—O—P(═O)(—OR_(a))₂.
 16. The compound of any one of claims 1-10 wherein R₂ is CH₂—O—P(═O)(—OR_(a))—O—P(═O)(—OR_(a))₂.
 17. The compound of any one of claims 1-10 wherein R₂ is —CH₂—P(═O)(—OR_(a))₂.
 18. The compound of any one of claims 11-10 wherein R₂ is —CH{—P(═O)(—OR_(a))₂}₂.
 19. The compound of any one of claims 1-10 wherein R₂ is —CH₂—P(═O)(—OR_(a))—O—P(═O)(—OR_(a))₂.
 20. The compound of any one of claims 1-10 wherein R₂ is —CH═CH{—P(O)(—OR_(a))₂}.
 21. The compound of any one of claims 1-10 wherein R₂ is —CH═C{—P(═O)(—OR_(a))₂}₂.
 22. The compound of any one of claims 1-21 wherein R_(a) is hydrogen.
 23. The compound of any one of claims 1-21 wherein R_(a) is —C(═O)—CH₃.
 24. The compound of any one of claims 1-21 wherein R_(a) is —CH₃.
 25. The compound of any one of claims 1-21 wherein R_(a) is —CH₂—O—(C₁-C₆)alkanoyl.
 26. The compound of any one of claims 2-25 wherein R_(b) is hydrogen.
 27. The compound of any one of claims 2-25 wherein R_(b) is —CH₃.
 28. The compound of any one of claims 1-27 wherein n is
 1. 29. The compound of any one of claims 1-27 wherein n is
 2. 30. The compound of any one of claims 1-27 wherein n is
 3. 31. The compound of any one of claims 1-30 wherein X is —NR_(a)—.
 32. The compound of any one of claims 1-30 wherein X is —NH—.
 33. The compound of any one of claims 1-30 wherein X is —N(CH₃)—.
 34. The compound of any one of claims 1-30 wherein X is —O—.
 35. The compound of any one of claims 1-30 wherein X is —S—.
 36. A pharmaceutical composition comprising a compound as described in any one of claims 1-35 and a pharmaceutically acceptable diluent or carrier.
 37. A method of treating cancer, comprising administering to a mammal afflicted with cancer, an amount of a compound as described in any one of claims 1-35, effective to treat said cancer.
 38. A method of inhibiting a prenylation transferase enzyme or synthase enzyme comprising contacting the enzyme with an effective amount of a compound as described in any one of claims 1-35.
 39. A method of accessing the metabolic status of an enzyme comprising: contacting the enzyme with an effective amount of a mixture of a famesol analog compound and a geraniol or geranylgeraniol analog compound as described in any one of claims 1-35; and measuring the relative ratio of famesylation to geranylgeranylation of the famesol and the geraniol or geranylgeraniol analog compounds accomplished by the enzyme.
 40. A compound as described in any one of claims 1-35 for use in medical therapy or diagnosis.
 41. The compound of claim 40 wherein the therapy or diagnosis is treating cancer.
 42. The use of a compound as described in any one of claims 1-35 for the manufacture of a medicament useful for the treatment of cancer.
 43. The use of a compound as described in any one of claims 1-35 for the manufacture of a medicament useful for inhibiting prenylation transferase enzymes in a mammal.
 44. A protein conjugate comprising a protein linked to a fluorescent fragment of a compound of any one of claims 1-35. 